Locus 8209

Sequence ID X_DroMel_CAF1
Location 20,402,257 – 20,402,357
Length 100
Max. P 0.970991
window13489 window13490

overview

Window 9

Location 20,402,257 – 20,402,357
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 89.50
Mean single sequence MFE -12.05
Consensus MFE -8.96
Energy contribution -8.78
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -1.76
Structure conservation index 0.74
SVM decision value 0.28
SVM RNA-class probability 0.667825
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20402257 100 + 22224390
CUUCGGAUUGCCAAAGUAAAAUAUUCACUUUUGGACAUCCAACCCUUUUCUUUAUCUCUGAUAACAUCUUUAUUUUCCAUCUAUUUACAAUUUAUAUUUU
....((((..(((((((.........)).)))))..))))...........(((((...))))).................................... (  -8.90)
>DroSec_CAF1 94990 100 + 1
CUUCGGAUUGCCAGAGUAAAAUAUUUACUUUUGGACAUCCAACCCUUUUGUUUGUCUCCGAUAACAUCUUUUUUUGCCAUCUAUUUACAAUAUAUAUUUU
..(((((...(.(((((((.....))))))).)((((..(((.....)))..)))))))))....................................... ( -15.60)
>DroSim_CAF1 48817 100 + 1
CUUCGGAUCGCCAAAGUAAAAUAUUCACUUUUGGACAUCCAACCCUUUUGUUUGUCUCCGAUAACAUUUUUAUUUGCCAUCUAUUUACAAUAUAUAUUUU
....((((.((..((((((((...........(((((..(((.....)))..)))))..........)))))))))).)))).................. ( -14.10)
>DroYak_CAF1 40930 99 + 1
CUUCGGAUUGCCAAAGUAAAAUAUCCACUUUUGGACAUCCAACCCUUUU-UCCAUCUGCGAUAACAUAGUCAUUCCCCAUCUAUUUACAAUCAAUAUUUU
....((((..(((((((.........)).)))))..)))).........-.........(((......)))............................. (  -9.60)
>consensus
CUUCGGAUUGCCAAAGUAAAAUAUUCACUUUUGGACAUCCAACCCUUUUGUUUAUCUCCGAUAACAUCUUUAUUUGCCAUCUAUUUACAAUAUAUAUUUU
....((((..(((((((.........)).)))))..))))............................................................ ( -8.96 =  -8.78 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,402,257 – 20,402,357
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 89.50
Mean single sequence MFE -19.25
Consensus MFE -17.29
Energy contribution -16.85
Covariance contribution -0.44
Combinations/Pair 1.22
Mean z-score -2.17
Structure conservation index 0.90
SVM decision value 1.67
SVM RNA-class probability 0.970991
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20402257 100 - 22224390
AAAAUAUAAAUUGUAAAUAGAUGGAAAAUAAAGAUGUUAUCAGAGAUAAAGAAAAGGGUUGGAUGUCCAAAAGUGAAUAUUUUACUUUGGCAAUCCGAAG
...................(((((...((....)).))))).................((((((..(((((.((((.....)))))))))..)))))).. ( -13.90)
>DroSec_CAF1 94990 100 - 1
AAAAUAUAUAUUGUAAAUAGAUGGCAAAAAAAGAUGUUAUCGGAGACAAACAAAAGGGUUGGAUGUCCAAAAGUAAAUAUUUUACUCUGGCAAUCCGAAG
..........((((.....(((((((........)))))))(....)..)))).....((((((..(((..(((((.....))))).)))..)))))).. ( -20.60)
>DroSim_CAF1 48817 100 - 1
AAAAUAUAUAUUGUAAAUAGAUGGCAAAUAAAAAUGUUAUCGGAGACAAACAAAAGGGUUGGAUGUCCAAAAGUGAAUAUUUUACUUUGGCGAUCCGAAG
..........((((.....(((((((........)))))))(....)..)))).....((((((..(((((.((((.....)))))))))..)))))).. ( -22.50)
>DroYak_CAF1 40930 99 - 1
AAAAUAUUGAUUGUAAAUAGAUGGGGAAUGACUAUGUUAUCGCAGAUGGA-AAAAGGGUUGGAUGUCCAAAAGUGGAUAUUUUACUUUGGCAAUCCGAAG
........((((((.........(.((.((((...)))))).).......-...(((((..((((((((....))))))))..))))).))))))..... ( -20.00)
>consensus
AAAAUAUAUAUUGUAAAUAGAUGGCAAAUAAAGAUGUUAUCGGAGACAAACAAAAGGGUUGGAUGUCCAAAAGUGAAUAUUUUACUUUGGCAAUCCGAAG
..........((((.....(((((((........)))))))....)))).........((((((..(((((.(((((...))))))))))..)))))).. (-17.29 = -16.85 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:28 2006